Revision 4076
Added by Aaron Marcuse-Kubitza over 12 years ago
mappings/VegCSV.self.specimens.csv | ||
---|---|---|
1 | 1 |
VegCSV[DwC],VegCSV[DwC] |
2 |
acceptedNameUsage,acceptedNameUsage |
|
3 |
acceptedNameUsageID,acceptedNameUsageID |
|
2 | 4 |
acidity,acidity |
5 |
associatedMedia,associatedMedia |
|
6 |
associatedOccurrences,associatedOccurrences |
|
7 |
associatedReferences,associatedReferences |
|
8 |
associatedSequences,associatedSequences |
|
9 |
associatedTaxa,associatedTaxa |
|
3 | 10 |
basalDiameter,basalDiameter |
4 | 11 |
baseSaturation,baseSaturation |
12 |
basisOfRecord,basisOfRecord |
|
13 |
bed,bed |
|
14 |
behavior,behavior |
|
5 | 15 |
calcium,calcium |
6 | 16 |
canopyForm,canopyForm |
7 | 17 |
canopyPosition,canopyPosition |
... | ... | |
11 | 21 |
censusNumber,censusNumber |
12 | 22 |
class,class |
13 | 23 |
clay,clay |
24 |
collectionCode,collectionCode |
|
25 |
collectionID,collectionID |
|
14 | 26 |
communityID,communityID |
15 | 27 |
communityName,communityName |
16 | 28 |
computer.family,computer.family |
... | ... | |
21 | 33 |
computer.taxonRank,computer.taxonRank |
22 | 34 |
conductivity,conductivity |
23 | 35 |
continent,continent |
36 |
coordinatePrecision,coordinatePrecision |
|
24 | 37 |
coordinateUncertaintyInMeters,coordinateUncertaintyInMeters |
25 | 38 |
country,country |
39 |
countryCode,countryCode |
|
26 | 40 |
county,county |
27 | 41 |
coverPercent,coverPercent |
42 |
dataGeneralizations,dataGeneralizations |
|
43 |
datasetID,datasetID |
|
44 |
datasetName,datasetName |
|
45 |
dateCollected,dateCollected |
|
46 |
dateIdentified,dateIdentified |
|
47 |
day,day |
|
48 |
dcterms:accessRights,dcterms:accessRights |
|
49 |
dcterms:bibliographicCitation,dcterms:bibliographicCitation |
|
50 |
dcterms:language,dcterms:language |
|
51 |
dcterms:modified,dcterms:modified |
|
52 |
dcterms:references,dcterms:references |
|
53 |
dcterms:rights,dcterms:rights |
|
54 |
dcterms:rightsHolder,dcterms:rightsHolder |
|
55 |
dcterms:type,dcterms:type |
|
28 | 56 |
decimalLatitude,decimalLatitude |
29 | 57 |
decimalLongitude,decimalLongitude |
30 | 58 |
diameterBreastHeight,diameterBreastHeight |
31 | 59 |
diameterBreastHeightGentry,diameterBreastHeightGentry |
60 |
disposition,disposition |
|
61 |
dynamicProperties,dynamicProperties |
|
62 |
earliestAgeOrLowestStage,earliestAgeOrLowestStage |
|
63 |
earliestEonOrLowestEonothem,earliestEonOrLowestEonothem |
|
64 |
earliestEpochOrLowestSeries,earliestEpochOrLowestSeries |
|
65 |
earliestEraOrLowestErathem,earliestEraOrLowestErathem |
|
66 |
earliestPeriodOrLowestSystem,earliestPeriodOrLowestSystem |
|
67 |
endDayOfYear,endDayOfYear |
|
68 |
establishmentMeans,establishmentMeans |
|
32 | 69 |
eventDate,eventDate |
70 |
eventID,eventID |
|
71 |
eventRemarks,eventRemarks |
|
72 |
eventTime,eventTime |
|
33 | 73 |
family,family |
34 | 74 |
fieldNotes,fieldNotes |
35 | 75 |
fieldNumber,fieldNumber |
76 |
footprintSRS,footprintSRS |
|
77 |
footprintSpatialFit,footprintSpatialFit |
|
36 | 78 |
footprintWKT,footprintWKT |
79 |
formation,formation |
|
37 | 80 |
genus,genus |
81 |
geodeticDatum,geodeticDatum |
|
82 |
geologicalContextID,geologicalContextID |
|
83 |
georeferenceProtocol,georeferenceProtocol |
|
84 |
georeferenceRemarks,georeferenceRemarks |
|
85 |
georeferenceSources,georeferenceSources |
|
86 |
georeferenceVerificationStatus,georeferenceVerificationStatus |
|
87 |
georeferencedBy,georeferencedBy |
|
88 |
georeferencedDate,georeferencedDate |
|
89 |
group,group |
|
38 | 90 |
growthForm,growthForm |
91 |
habitat,habitat |
|
39 | 92 |
height,height |
40 | 93 |
heightFirstBranch,heightFirstBranch |
94 |
higherClassification,higherClassification |
|
95 |
higherGeography,higherGeography |
|
96 |
higherGeographyID,higherGeographyID |
|
97 |
highestBiostratigraphicZone,highestBiostratigraphicZone |
|
98 |
identificationID,identificationID |
|
41 | 99 |
identificationQualifier,identificationQualifier |
100 |
identificationReferences,identificationReferences |
|
101 |
identificationRemarks,identificationRemarks |
|
102 |
identificationVerificationStatus,identificationVerificationStatus |
|
103 |
identifiedBy,identifiedBy |
|
42 | 104 |
individualCount,individualCount |
43 | 105 |
individualID,individualID |
106 |
informationWithheld,informationWithheld |
|
44 | 107 |
infraspecificEpithet,infraspecificEpithet |
108 |
institutionCode,institutionCode |
|
109 |
institutionID,institutionID |
|
110 |
island,island |
|
111 |
islandGroup,islandGroup |
|
45 | 112 |
kingdom,kingdom |
46 | 113 |
landform,landform |
114 |
latestAgeOrHighestStage,latestAgeOrHighestStage |
|
115 |
latestEonOrHighestEonothem,latestEonOrHighestEonothem |
|
116 |
latestEpochOrHighestSeries,latestEpochOrHighestSeries |
|
117 |
latestEraOrHighestErathem,latestEraOrHighestErathem |
|
118 |
latestPeriodOrHighestSystem,latestPeriodOrHighestSystem |
|
47 | 119 |
lianaInfestation,lianaInfestation |
120 |
lifeStage,lifeStage |
|
121 |
lithostratigraphicTerms,lithostratigraphicTerms |
|
48 | 122 |
locality,locality |
123 |
locationAccordingTo,locationAccordingTo |
|
49 | 124 |
locationID,locationID |
125 |
locationRemarks,locationRemarks |
|
126 |
lowestBiostratigraphicZone,lowestBiostratigraphicZone |
|
50 | 127 |
magnesium,magnesium |
51 | 128 |
maximumDepthInMeters,maximumDepthInMeters |
129 |
maximumDistanceAboveSurfaceInMeters,maximumDistanceAboveSurfaceInMeters |
|
52 | 130 |
maximumElevationInMeters,maximumElevationInMeters |
131 |
measurementAccuracy,measurementAccuracy |
|
132 |
measurementDeterminedBy,measurementDeterminedBy |
|
133 |
measurementDeterminedDate,measurementDeterminedDate |
|
134 |
measurementID,measurementID |
|
135 |
measurementMethod,measurementMethod |
|
136 |
measurementRemarks,measurementRemarks |
|
137 |
measurementType,measurementType |
|
138 |
measurementUnit,measurementUnit |
|
139 |
measurementValue,measurementValue |
|
140 |
member,member |
|
53 | 141 |
minimumDepthInMeters,minimumDepthInMeters |
142 |
minimumDistanceAboveSurfaceInMeters,minimumDistanceAboveSurfaceInMeters |
|
54 | 143 |
minimumElevationInMeters,minimumElevationInMeters |
144 |
month,month |
|
145 |
municipality,municipality |
|
146 |
nameAccordingTo,nameAccordingTo |
|
147 |
nameAccordingToID,nameAccordingToID |
|
148 |
namePublishedIn,namePublishedIn |
|
149 |
namePublishedInID,namePublishedInID |
|
150 |
namePublishedInYear,namePublishedInYear |
|
55 | 151 |
nitrogen,nitrogen |
152 |
nomenclaturalCode,nomenclaturalCode |
|
153 |
nomenclaturalStatus,nomenclaturalStatus |
|
154 |
occurrenceID,occurrenceID |
|
155 |
occurrenceRemarks,occurrenceRemarks |
|
156 |
occurrenceStatus,occurrenceStatus |
|
56 | 157 |
order,order |
57 | 158 |
organic,organic |
159 |
originalNameUsage,originalNameUsage |
|
160 |
originalNameUsageID,originalNameUsageID |
|
161 |
otherCatalogNumbers,otherCatalogNumbers |
|
162 |
ownerInstitutionCode,ownerInstitutionCode |
|
58 | 163 |
parentLocationID,parentLocationID |
164 |
parentNameUsage,parentNameUsage |
|
165 |
parentNameUsageID,parentNameUsageID |
|
59 | 166 |
parentPlotName,parentPlotName |
60 | 167 |
ph,ph |
61 | 168 |
phosphorus,phosphorus |
... | ... | |
65 | 172 |
plotEventStartDate,plotEventStartDate |
66 | 173 |
plotName,plotName |
67 | 174 |
plotNotes,plotNotes |
175 |
pointRadiusSpatialFit,pointRadiusSpatialFit |
|
68 | 176 |
potassium,potassium |
69 | 177 |
precipitation,precipitation |
178 |
preparations,preparations |
|
179 |
previousIdentifications,previousIdentifications |
|
70 | 180 |
previousTag,previousTag |
71 | 181 |
projectID,projectID |
72 | 182 |
projectName,projectName |
73 | 183 |
recordNumber,recordNumber |
184 |
recordedBy,recordedBy |
|
74 | 185 |
recordedBy.givenName,recordedBy.givenName |
75 | 186 |
recordedBy.surName,recordedBy.surName |
187 |
relatedResourceID,relatedResourceID |
|
188 |
relationshipAccordingTo,relationshipAccordingTo |
|
189 |
relationshipEstablishedDate,relationshipEstablishedDate |
|
190 |
relationshipOfResource,relationshipOfResource |
|
191 |
relationshipRemarks,relationshipRemarks |
|
76 | 192 |
relativePlotX,relativePlotX |
77 | 193 |
relativePlotY,relativePlotY |
194 |
reproductiveCondition,reproductiveCondition |
|
195 |
resourceID,resourceID |
|
196 |
resourceRelationshipID,resourceRelationshipID |
|
197 |
samplingEffort,samplingEffort |
|
78 | 198 |
samplingProtocol,samplingProtocol |
79 | 199 |
sand,sand |
80 | 200 |
scientificName,scientificName |
81 | 201 |
scientificNameAuthorship,scientificNameAuthorship |
202 |
scientificNameID,scientificNameID |
|
203 |
sex,sex |
|
82 | 204 |
silt,silt |
83 | 205 |
slopeAspect,slopeAspect |
84 | 206 |
slopeGradient,slopeGradient |
85 | 207 |
sodium,sodium |
86 | 208 |
specificEpithet,specificEpithet |
209 |
startDayOfYear,startDayOfYear |
|
87 | 210 |
stateProvince,stateProvince |
88 | 211 |
stemCount,stemCount |
89 | 212 |
stemNotes,stemNotes |
213 |
subgenus,subgenus |
|
90 | 214 |
tag,tag |
215 |
taxonConceptID,taxonConceptID |
|
216 |
taxonID,taxonID |
|
217 |
taxonRank,taxonRank |
|
218 |
taxonRemarks,taxonRemarks |
|
219 |
taxonomicStatus,taxonomicStatus |
|
91 | 220 |
temperature,temperature |
92 | 221 |
texture,texture |
222 |
typeStatus,typeStatus |
|
223 |
verbatimCoordinateSystem,verbatimCoordinateSystem |
|
224 |
verbatimCoordinates,verbatimCoordinates |
|
225 |
verbatimDepth,verbatimDepth |
|
93 | 226 |
verbatimElevation,verbatimElevation |
227 |
verbatimEventDate,verbatimEventDate |
|
228 |
verbatimLatitude,verbatimLatitude |
|
229 |
verbatimLocality,verbatimLocality |
|
230 |
verbatimLongitude,verbatimLongitude |
|
231 |
verbatimSRS,verbatimSRS |
|
232 |
verbatimTaxonRank,verbatimTaxonRank |
|
233 |
vernacularName,vernacularName |
|
94 | 234 |
volumeCanopy,volumeCanopy |
95 | 235 |
voucherType,voucherType |
236 |
waterBody,waterBody |
|
237 |
year,year |
mappings/for_review/DwC2-VegBIEN.specimens.csv | ||
---|---|---|
30 | 30 |
dateCollected,//aggregateoccurrence/collectiondate/_*/date, |
31 | 31 |
individualCount,//aggregateoccurrence/count, |
32 | 32 |
fieldNotes,//aggregateoccurrence/notes, |
33 |
recordNumber,//plantobservation/authorplantcode,
|
|
33 |
recordNumber,//plantobservation/collectionnumber,
|
|
34 | 34 |
sex,"//plantobservation/definedvalue[*_id/userdefined[tablename=plantobservation,userdefinedname=sex]]/definedvalue","Brad: OMIT. Apparently not used by this institution and of uncertain applicability to plants. With other collections, *sometimes* used for phenological information (if specimen in flower, in fruit, sterile, etc.). If so, this is important information we should keep. Bob, Nick, anywhere for phenological information in VB and VX?; Aaron: Keeping it because it's useful for some collections" |
35 | 35 |
individualID,//plantobservation/sourceaccessioncode, |
36 | 36 |
catalogNumber,"//specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/else", |
37 | 37 |
collectionCode,//specimenreplicate/collectioncode_dwc,Brad: Not sure if mapping correct. DwC element; code for entire collection; often same as InstitutionCode; Aaron: Combining with InstitutionCode to create collection name |
38 | 38 |
collectionID,//specimenreplicate/collectioncode_dwc, |
39 |
recordNumber,//specimenreplicate/collectionnumber, |
|
40 | 39 |
institutionCode,//party/organizationname, |
41 | 40 |
occurrenceID,//specimenreplicate/sourceaccessioncode, |
42 | 41 |
recordNumber,//taxonoccurrence/authortaxoncode, |
mappings/DwC.cs-VegBIEN.specimens.csv | ||
---|---|---|
58 | 58 |
individualCount,/location/locationevent/taxonoccurrence/aggregateoccurrence/count, |
59 | 59 |
fieldNotes,/location/locationevent/taxonoccurrence/aggregateoccurrence/notes, |
60 | 60 |
notes,/location/locationevent/taxonoccurrence/aggregateoccurrence/notes, |
61 |
collectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode/_alt/1,
|
|
62 |
recordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode/_alt/2,
|
|
61 |
collectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber/_alt/1,
|
|
62 |
recordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber/_alt/2,
|
|
63 | 63 |
sex,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/definedvalue[*_id/userdefined[tablename=plantobservation,userdefinedname=sex]]:[@fkey=tablerecord_id]/definedvalue","Brad: OMIT. Apparently not used by this institution and of uncertain applicability to plants. With other collections, *sometimes* used for phenological information (if specimen in flower, in fruit, sterile, etc.). If so, this is important information we should keep. Bob, Nick, anywhere for phenological information in VB and VX?; Aaron: Keeping it because it's useful for some collections" |
64 | 64 |
individualID,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/sourceaccessioncode, |
65 | 65 |
catalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/else", |
66 | 66 |
collectionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_merge/1,Brad: Not sure if mapping correct. DwC element; code for entire collection; often same as InstitutionCode; Aaron: Combining with InstitutionCode to create collection name |
67 | 67 |
collectionID,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_merge/2, |
68 |
collectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectionnumber/_alt/1, |
|
69 |
recordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectionnumber/_alt/2, |
|
70 | 68 |
institutionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/party/organizationname, |
71 | 69 |
globalUniqueIdentifier,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
72 | 70 |
id,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
inputs/XAL/test/import.specimens.xml.ref | ||
---|---|---|
239 | 239 |
<count>$IndividualCount</count> |
240 | 240 |
<notes>$Notes</notes> |
241 | 241 |
<plantobservation> |
242 |
<authorplantcode>$CollectorNumber</authorplantcode>
|
|
242 |
<collectionnumber>$CollectorNumber</collectionnumber>
|
|
243 | 243 |
<definedvalue fkey="tablerecord_id"> |
244 | 244 |
<userdefined_id> |
245 | 245 |
<userdefined> |
... | ... | |
252 | 252 |
<specimenreplicate> |
253 | 253 |
<catalognumber_dwc><_if name="if indirect voucher"><else>$CatalogNumber</else></_if></catalognumber_dwc> |
254 | 254 |
<collectioncode_dwc>$CollectionCode</collectioncode_dwc> |
255 |
<collectionnumber>$CollectorNumber</collectionnumber> |
|
256 | 255 |
<institution_id><party><organizationname>$InstitutionCode</organizationname></party></institution_id> |
257 | 256 |
</specimenreplicate> |
258 | 257 |
</plantobservation> |
inputs/XAL/maps/VegBIEN.specimens.csv | ||
---|---|---|
26 | 26 |
YearCollected,"/location/locationevent/taxonoccurrence/aggregateoccurrence/collectiondate/_*/date/_alt/1/_date/year/_nullIf:[null=0,type=float]/value", |
27 | 27 |
IndividualCount,/location/locationevent/taxonoccurrence/aggregateoccurrence/count, |
28 | 28 |
Notes,/location/locationevent/taxonoccurrence/aggregateoccurrence/notes, |
29 |
CollectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode/_alt/1,
|
|
29 |
CollectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber/_alt/1,
|
|
30 | 30 |
Sex,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/definedvalue[*_id/userdefined[tablename=plantobservation,userdefinedname=sex]]:[@fkey=tablerecord_id]/definedvalue","Brad: OMIT. Apparently not used by this institution and of uncertain applicability to plants. With other collections, *sometimes* used for phenological information (if specimen in flower, in fruit, sterile, etc.). If so, this is important information we should keep. Bob, Nick, anywhere for phenological information in VB and VX?; Aaron: Keeping it because it's useful for some collections" |
31 | 31 |
CatalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/else", |
32 | 32 |
CollectionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_merge/1,Brad: Not sure if mapping correct. DwC element; code for entire collection; often same as InstitutionCode; Aaron: Combining with InstitutionCode to create collection name |
33 |
CollectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectionnumber/_alt/1, |
|
34 | 33 |
InstitutionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/party/organizationname, |
35 | 34 |
CollectorNumber,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1/_alt/1, |
36 | 35 |
IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/party/givenname/_namePart/first, |
inputs/NY/test/import.specimens.xml.ref | ||
---|---|---|
269 | 269 |
</_merge> |
270 | 270 |
</notes> |
271 | 271 |
<plantobservation> |
272 |
<authorplantcode>
|
|
272 |
<collectionnumber>
|
|
273 | 273 |
<_alt> |
274 | 274 |
<1>$CollectorNumber</1> |
275 | 275 |
<2>$FieldNumber</2> |
276 | 276 |
</_alt> |
277 |
</authorplantcode>
|
|
277 |
</collectionnumber>
|
|
278 | 278 |
<definedvalue fkey="tablerecord_id"> |
279 | 279 |
<userdefined_id> |
280 | 280 |
<userdefined> |
... | ... | |
287 | 287 |
<specimenreplicate> |
288 | 288 |
<catalognumber_dwc><_if name="if indirect voucher"><else>$CatalogNumber</else></_if></catalognumber_dwc> |
289 | 289 |
<collectioncode_dwc>$CollectionCode</collectioncode_dwc> |
290 |
<collectionnumber> |
|
291 |
<_alt> |
|
292 |
<1>$CollectorNumber</1> |
|
293 |
<2>$FieldNumber</2> |
|
294 |
</_alt> |
|
295 |
</collectionnumber> |
|
296 | 290 |
<institution_id><party><organizationname>$InstitutionCode</organizationname></party></institution_id> |
297 | 291 |
<sourceaccessioncode>$UniqueNYInternalRecordNumber</sourceaccessioncode> |
298 | 292 |
</specimenreplicate> |
inputs/NY/maps/VegBIEN.specimens.csv | ||
---|---|---|
28 | 28 |
IndividualCount,/location/locationevent/taxonoccurrence/aggregateoccurrence/count, |
29 | 29 |
Notes,/location/locationevent/taxonoccurrence/aggregateoccurrence/notes/_merge/1, |
30 | 30 |
PlantFungusDescription,"/location/locationevent/taxonoccurrence/aggregateoccurrence/notes/_merge/2/_label[label=""plant fungus""]/value", |
31 |
CollectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode/_alt/1,
|
|
32 |
FieldNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode/_alt/2,Usage inconsistent with DwC definition
|
|
31 |
CollectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber/_alt/1,
|
|
32 |
FieldNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber/_alt/2,Usage inconsistent with DwC definition
|
|
33 | 33 |
Sex,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/definedvalue[*_id/userdefined[tablename=plantobservation,userdefinedname=sex]]:[@fkey=tablerecord_id]/definedvalue","Brad: OMIT. Apparently not used by this institution and of uncertain applicability to plants. With other collections, *sometimes* used for phenological information (if specimen in flower, in fruit, sterile, etc.). If so, this is important information we should keep. Bob, Nick, anywhere for phenological information in VB and VX?; Aaron: Keeping it because it's useful for some collections" |
34 | 34 |
CatalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/else", |
35 | 35 |
CollectionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_merge/1,Brad: Not sure if mapping correct. DwC element; code for entire collection; often same as InstitutionCode; Aaron: Combining with InstitutionCode to create collection name |
36 |
CollectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectionnumber/_alt/1, |
|
37 |
FieldNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectionnumber/_alt/2,Usage inconsistent with DwC definition |
|
38 | 36 |
InstitutionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/party/organizationname, |
39 | 37 |
UniqueNYInternalRecordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
40 | 38 |
CollectorNumber,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1/_alt/1, |
inputs/UNCC/test/import.specimens.xml.ref | ||
---|---|---|
158 | 158 |
</_merge> |
159 | 159 |
</notes> |
160 | 160 |
<plantobservation> |
161 |
<authorplantcode>$collectno</authorplantcode>
|
|
161 |
<collectionnumber>$collectno</collectionnumber>
|
|
162 | 162 |
<specimenreplicate> |
163 |
<collectionnumber>$collectno</collectionnumber> |
|
164 | 163 |
<institution_id><party><organizationname>$herbarium</organizationname></party></institution_id> |
165 | 164 |
<sourceaccessioncode>$accession</sourceaccessioncode> |
166 | 165 |
</specimenreplicate> |
inputs/UNCC/maps/VegBIEN.specimens.csv | ||
---|---|---|
20 | 20 |
campus,"/location/locationevent/taxonoccurrence/aggregateoccurrence/notes/_merge/5/_label[label=""campus""]/value", |
21 | 21 |
loanto,"/location/locationevent/taxonoccurrence/aggregateoccurrence/notes/_merge/6/_label[label=""loaned to""]/value", |
22 | 22 |
inorout,"/location/locationevent/taxonoccurrence/aggregateoccurrence/notes/_merge/7/_label[label=""in or out""]/value", |
23 |
collectno,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode/_alt/1, |
|
24 |
collectno,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectionnumber/_alt/1, |
|
23 |
collectno,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber/_alt/1, |
|
25 | 24 |
herbarium,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/party/organizationname, |
26 | 25 |
accession,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
27 | 26 |
collectno,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1/_alt/1, |
inputs/ACAD/test/import.specimens.xml.ref | ||
---|---|---|
76 | 76 |
<taxonoccurrence> |
77 | 77 |
<aggregateoccurrence> |
78 | 78 |
<plantobservation> |
79 |
<authorplantcode>$recordNumber</authorplantcode>
|
|
79 |
<collectionnumber>$recordNumber</collectionnumber>
|
|
80 | 80 |
<specimenreplicate> |
81 | 81 |
<catalognumber_dwc><_if name="if indirect voucher"><else>$catalogNumber</else></_if></catalognumber_dwc> |
82 | 82 |
<collectioncode_dwc> |
... | ... | |
85 | 85 |
<2>$collectionID</2> |
86 | 86 |
</_merge> |
87 | 87 |
</collectioncode_dwc> |
88 |
<collectionnumber>$recordNumber</collectionnumber> |
|
89 | 88 |
<institution_id><party><organizationname>$institutionCode</organizationname></party></institution_id> |
90 | 89 |
<sourceaccessioncode>$id</sourceaccessioncode> |
91 | 90 |
</specimenreplicate> |
inputs/ACAD/maps/VegBIEN.specimens.csv | ||
---|---|---|
13 | 13 |
continent,"/location/locationdetermination/namedplace_id/_simplifyPath:[next=""parent_id/namedplace"",require=placename]/path/_forEach:[in:[county,stateProvince,country,],do=""namedplace[rank=_val]/parent_id""]/namedplace[rank=continent]/placename", |
14 | 14 |
eventDate,/location/locationevent/obsenddate/_*/date/_dateRangeEnd/value/_alt/1, |
15 | 15 |
eventDate,/location/locationevent/obsstartdate/_*/date/_dateRangeStart/value/_alt/1, |
16 |
recordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode/_alt/2,
|
|
16 |
recordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber/_alt/2,
|
|
17 | 17 |
catalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/else", |
18 | 18 |
collectionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_merge/1,Brad: Not sure if mapping correct. DwC element; code for entire collection; often same as InstitutionCode; Aaron: Combining with InstitutionCode to create collection name |
19 | 19 |
collectionID,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_merge/2, |
20 |
recordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectionnumber/_alt/2, |
|
21 | 20 |
institutionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/party/organizationname, |
22 | 21 |
id,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
23 | 22 |
recordNumber,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1/_alt/2, |
inputs/SALVIAS-CSV/test/import.organisms.xml.ref | ||
---|---|---|
39 | 39 |
</definedvalue> |
40 | 40 |
<linecover>$intercept_cm</linecover> |
41 | 41 |
<plantobservation> |
42 |
<authorplantcode>$individual_code</authorplantcode>
|
|
42 |
<collectionnumber>$individual_code</collectionnumber>
|
|
43 | 43 |
<sourceaccessioncode>$OBSERVATION_ID</sourceaccessioncode> |
44 | 44 |
<specimenreplicate> |
45 | 45 |
<catalognumber_dwc> |
inputs/SALVIAS-CSV/maps/VegBIEN.organisms.csv | ||
---|---|---|
15 | 15 |
cover_percent,/location/locationevent/taxonoccurrence/aggregateoccurrence/cover, |
16 | 16 |
census_no,"/location/locationevent/taxonoccurrence/aggregateoccurrence/definedvalue[*_id/userdefined[tablename=aggregateoccurrence,userdefinedname=censusNo]]:[@fkey=tablerecord_id]/definedvalue","Brad: Assigned by SALVIAS. 1 for first plot, then 2, 3, etc. I can't recall if we even have repeat censuses in SALVIAS. Probably not." |
17 | 17 |
intercept_cm,/location/locationevent/taxonoccurrence/aggregateoccurrence/linecover,"Brad: Incorrect for VegBank This is an aggregate observation. Used in line-intercept methodology only, describes the point along centerline at which an individual intercepts the center line of the plot. Used to determin relative abundance." |
18 |
individual_code,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode,"Brad: Code, if any, used by the data provider to indicate an individual tree. Scope is unknown, although typically this value is unique only within plot, or sometimes only within subplot."
|
|
18 |
individual_code,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber,"Brad: Code, if any, used by the data provider to indicate an individual tree. Scope is unknown, although typically this value is unique only within plot, or sometimes only within subplot."
|
|
19 | 19 |
OBSERVATION_ID,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/sourceaccessioncode,"Brad: Neither is correct; this is just an internal ID for table plotObservations. However, it has the important property of uniquely identifying an ""observation"", which is an individual tree, in the case of an individual observation, or a records of a species with an associated count of individuals or measurement of percent cover, in the case of aggregate observations. Not sure where to store this. Main point is that it is not part of the original data, but an auto_increment added later." |
20 | 20 |
det_type,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/cond/_eq:[right=indirect]/left","Brad: A SALVIAS value referring to the relationship between the voucher specimen and the observation. Affect how the identification of the specimen(latin name) is transferred to the observation. 'direct'=voucher specimen was collected from this same tree; they are one and the same individual. 'indirect'=voucher specimen was collected for a different individual, but the original data provider confirmed that this is the same species. 'default'=basically same as 'indirect'. 'uncollected'=no voucher specimen, data provider asserted that this was the name but was unable to collect. The main different is that with 'direct', 'indirect', and 'default', the scientific name can be updated automatically based on the name attached to the specimen voucher (assuming you have a link to that data, presumably from a herbarium database. Whereas, if det_type='uncollected', the name can never change because there is no specimen." |
21 | 21 |
coll_number,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/else/_alt/1",Brad: Incorrect. Map instead as for voucher_string |
inputs/SALVIAS/test/import.organisms.xml.ref | ||
---|---|---|
41 | 41 |
<linecover>$intercept_cm</linecover> |
42 | 42 |
<notes>$Notes</notes> |
43 | 43 |
<plantobservation> |
44 |
<authorplantcode>$Ind</authorplantcode>
|
|
44 |
<collectionnumber>$Ind</collectionnumber>
|
|
45 | 45 |
<sourceaccessioncode>$PlotObsID</sourceaccessioncode> |
46 | 46 |
<specimenreplicate> |
47 | 47 |
<catalognumber_dwc> |
inputs/SALVIAS/maps/VegBIEN.organisms.csv | ||
---|---|---|
24 | 24 |
census_no,"/location/locationevent/taxonoccurrence/aggregateoccurrence/definedvalue[*_id/userdefined[tablename=aggregateoccurrence,userdefinedname=censusNo]]:[@fkey=tablerecord_id]/definedvalue","Brad: Assigned by SALVIAS. 1 for first plot, then 2, 3, etc. I can't recall if we even have repeat censuses in SALVIAS. Probably not." |
25 | 25 |
intercept_cm,/location/locationevent/taxonoccurrence/aggregateoccurrence/linecover,"Brad: Incorrect for VegBank This is an aggregate observation. Used in line-intercept methodology only, describes the point along centerline at which an individual intercepts the center line of the plot. Used to determin relative abundance." |
26 | 26 |
Notes,/location/locationevent/taxonoccurrence/aggregateoccurrence/notes, |
27 |
Ind,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode,"Brad: Code, if any, used by the data provider to indicate an individual tree. Scope is unknown, although typically this value is unique only within plot, or sometimes only within subplot."
|
|
27 |
Ind,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber,"Brad: Code, if any, used by the data provider to indicate an individual tree. Scope is unknown, although typically this value is unique only within plot, or sometimes only within subplot."
|
|
28 | 28 |
PlotObsID,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/sourceaccessioncode,"Brad: Neither is correct; this is just an internal ID for table plotObservations. However, it has the important property of uniquely identifying an ""observation"", which is an individual tree, in the case of an individual observation, or a records of a species with an associated count of individuals or measurement of percent cover, in the case of aggregate observations. Not sure where to store this. Main point is that it is not part of the original data, but an auto_increment added later." |
29 | 29 |
DetType,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/cond/_eq:[right=indirect]/left","Brad: A SALVIAS value referring to the relationship between the voucher specimen and the observation. Affect how the identification of the specimen(latin name) is transferred to the observation. 'direct'=voucher specimen was collected from this same tree; they are one and the same individual. 'indirect'=voucher specimen was collected for a different individual, but the original data provider confirmed that this is the same species. 'default'=basically same as 'indirect'. 'uncollected'=no voucher specimen, data provider asserted that this was the name but was unable to collect. The main different is that with 'direct', 'indirect', and 'default', the scientific name can be updated automatically based on the name attached to the specimen voucher (assuming you have a link to that data, presumably from a herbarium database. Whereas, if det_type='uncollected', the name can never change because there is no specimen." |
30 | 30 |
coll_number,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/else/_alt/1",Brad: Incorrect. Map instead as for voucher_string |
inputs/U/test/import.specimens.xml.ref | ||
---|---|---|
145 | 145 |
</collectiondate> |
146 | 146 |
<notes>$Notes</notes> |
147 | 147 |
<plantobservation> |
148 |
<authorplantcode>$Number</authorplantcode>
|
|
148 |
<collectionnumber>$Number</collectionnumber>
|
|
149 | 149 |
<specimenreplicate> |
150 | 150 |
<catalognumber_dwc><_if name="if indirect voucher"><else>$Barcode</else></_if></catalognumber_dwc> |
151 |
<collectionnumber>$Number</collectionnumber> |
|
152 | 151 |
<sourceaccessioncode>$ID</sourceaccessioncode> |
153 | 152 |
</specimenreplicate> |
154 | 153 |
</plantobservation> |
inputs/U/maps/VegBIEN.specimens.csv | ||
---|---|---|
14 | 14 |
Collmm,"/location/locationevent/taxonoccurrence/aggregateoccurrence/collectiondate/_*/date/_alt/1/_date/month/_nullIf:[null=0,type=float]/value", |
15 | 15 |
Collyy,"/location/locationevent/taxonoccurrence/aggregateoccurrence/collectiondate/_*/date/_alt/1/_date/year/_nullIf:[null=0,type=float]/value", |
16 | 16 |
Notes,/location/locationevent/taxonoccurrence/aggregateoccurrence/notes, |
17 |
Number,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode/_alt/2,
|
|
17 |
Number,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber/_alt/2,
|
|
18 | 18 |
Barcode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/else", |
19 |
Number,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectionnumber/_alt/2, |
|
20 | 19 |
ID,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
21 | 20 |
Number,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1/_alt/2, |
22 | 21 |
Detby,/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/party/givenname/_namePart/first, |
inputs/ARIZ/test/import.specimens.xml.ref | ||
---|---|---|
291 | 291 |
<count>$IndividualCount</count> |
292 | 292 |
<notes>$FieldNotes</notes> |
293 | 293 |
<plantobservation> |
294 |
<authorplantcode>
|
|
294 |
<collectionnumber>
|
|
295 | 295 |
<_alt> |
296 | 296 |
<1>$CollectorNumber</1> |
297 | 297 |
<2>$FieldNumber</2> |
298 | 298 |
</_alt> |
299 |
</authorplantcode>
|
|
299 |
</collectionnumber>
|
|
300 | 300 |
<definedvalue fkey="tablerecord_id"> |
301 | 301 |
<userdefined_id> |
302 | 302 |
<userdefined> |
... | ... | |
309 | 309 |
<specimenreplicate> |
310 | 310 |
<catalognumber_dwc><_if name="if indirect voucher"><else>$CatalogNumberNumeric</else></_if></catalognumber_dwc> |
311 | 311 |
<collectioncode_dwc>$CollectionCode</collectioncode_dwc> |
312 |
<collectionnumber> |
|
313 |
<_alt> |
|
314 |
<1>$CollectorNumber</1> |
|
315 |
<2>$FieldNumber</2> |
|
316 |
</_alt> |
|
317 |
</collectionnumber> |
|
318 | 312 |
<institution_id><party><organizationname>$InstitutionCode</organizationname></party></institution_id> |
319 | 313 |
<sourceaccessioncode>$GlobalUniqueIdentifier</sourceaccessioncode> |
320 | 314 |
</specimenreplicate> |
inputs/ARIZ/maps/VegBIEN.specimens.csv | ||
---|---|---|
33 | 33 |
YearCollected,"/location/locationevent/taxonoccurrence/aggregateoccurrence/collectiondate/_*/date/_alt/1/_date/year/_nullIf:[null=0,type=float]/value", |
34 | 34 |
IndividualCount,/location/locationevent/taxonoccurrence/aggregateoccurrence/count, |
35 | 35 |
FieldNotes,/location/locationevent/taxonoccurrence/aggregateoccurrence/notes, |
36 |
CollectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode/_alt/1,
|
|
37 |
FieldNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode/_alt/2,Usage inconsistent with DwC definition
|
|
36 |
CollectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber/_alt/1,
|
|
37 |
FieldNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber/_alt/2,Usage inconsistent with DwC definition
|
|
38 | 38 |
Sex,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/definedvalue[*_id/userdefined[tablename=plantobservation,userdefinedname=sex]]:[@fkey=tablerecord_id]/definedvalue","Brad: OMIT. Apparently not used by this institution and of uncertain applicability to plants. With other collections, *sometimes* used for phenological information (if specimen in flower, in fruit, sterile, etc.). If so, this is important information we should keep. Bob, Nick, anywhere for phenological information in VB and VX?; Aaron: Keeping it because it's useful for some collections" |
39 | 39 |
CatalogNumberNumeric,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/else", |
40 | 40 |
CollectionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_merge/1,Brad: Not sure if mapping correct. DwC element; code for entire collection; often same as InstitutionCode; Aaron: Combining with InstitutionCode to create collection name |
41 |
CollectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectionnumber/_alt/1, |
|
42 |
FieldNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectionnumber/_alt/2,Usage inconsistent with DwC definition |
|
43 | 41 |
InstitutionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/party/organizationname, |
44 | 42 |
GlobalUniqueIdentifier,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
45 | 43 |
CollectorNumber,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1/_alt/1, |
inputs/SpeciesLink/test/import.specimens.xml.ref | ||
---|---|---|
391 | 391 |
</count> |
392 | 392 |
<notes>$conceptual_darwin_2003_1_0_Notes</notes> |
393 | 393 |
<plantobservation> |
394 |
<authorplantcode>
|
|
394 |
<collectionnumber>
|
|
395 | 395 |
<_alt> |
396 | 396 |
<1> |
397 | 397 |
<_alt> |
... | ... | |
401 | 401 |
</1> |
402 | 402 |
<2>$dwc_terms_recordNumber</2> |
403 | 403 |
</_alt> |
404 |
</authorplantcode>
|
|
404 |
</collectionnumber>
|
|
405 | 405 |
<definedvalue fkey="tablerecord_id"> |
406 | 406 |
<userdefined_id> |
407 | 407 |
<userdefined> |
... | ... | |
441 | 441 |
<2>$dwc_terms_collectionID</2> |
442 | 442 |
</_merge> |
443 | 443 |
</collectioncode_dwc> |
444 |
<collectionnumber> |
|
445 |
<_alt> |
|
446 |
<1> |
|
447 |
<_alt> |
|
448 |
<0>$dwc_curatorial_CollectorNumber</0> |
|
449 |
<1>$conceptual_darwin_2003_1_0_CollectorNumber</1> |
|
450 |
</_alt> |
|
451 |
</1> |
|
452 |
<2>$dwc_terms_recordNumber</2> |
|
453 |
</_alt> |
|
454 |
</collectionnumber> |
|
455 | 444 |
<institution_id> |
456 | 445 |
<party> |
457 | 446 |
<organizationname> |
inputs/SpeciesLink/maps/VegBIEN.specimens.csv | ||
---|---|---|
58 | 58 |
IndividualCount,/location/locationevent/taxonoccurrence/aggregateoccurrence/count, |
59 | 59 |
individualCount,/location/locationevent/taxonoccurrence/aggregateoccurrence/count, |
60 | 60 |
Notes,/location/locationevent/taxonoccurrence/aggregateoccurrence/notes, |
61 |
CollectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode/_alt/1,
|
|
62 |
recordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode/_alt/2,
|
|
61 |
CollectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber/_alt/1,
|
|
62 |
recordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber/_alt/2,
|
|
63 | 63 |
Sex,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/definedvalue[*_id/userdefined[tablename=plantobservation,userdefinedname=sex]]:[@fkey=tablerecord_id]/definedvalue","Brad: OMIT. Apparently not used by this institution and of uncertain applicability to plants. With other collections, *sometimes* used for phenological information (if specimen in flower, in fruit, sterile, etc.). If so, this is important information we should keep. Bob, Nick, anywhere for phenological information in VB and VX?; Aaron: Keeping it because it's useful for some collections" |
64 | 64 |
sex,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/definedvalue[*_id/userdefined[tablename=plantobservation,userdefinedname=sex]]:[@fkey=tablerecord_id]/definedvalue","Brad: OMIT. Apparently not used by this institution and of uncertain applicability to plants. With other collections, *sometimes* used for phenological information (if specimen in flower, in fruit, sterile, etc.). If so, this is important information we should keep. Bob, Nick, anywhere for phenological information in VB and VX?; Aaron: Keeping it because it's useful for some collections" |
65 | 65 |
CatalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/else", |
... | ... | |
67 | 67 |
CollectionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_merge/1,Brad: Not sure if mapping correct. DwC element; code for entire collection; often same as InstitutionCode; Aaron: Combining with InstitutionCode to create collection name |
68 | 68 |
collectionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_merge/1,Brad: Not sure if mapping correct. DwC element; code for entire collection; often same as InstitutionCode; Aaron: Combining with InstitutionCode to create collection name |
69 | 69 |
collectionID,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_merge/2, |
70 |
CollectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectionnumber/_alt/1, |
|
71 |
recordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectionnumber/_alt/2, |
|
72 | 70 |
InstitutionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/party/organizationname, |
73 | 71 |
institutionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/party/organizationname, |
74 | 72 |
GlobalUniqueIdentifier,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
inputs/MO/test/import.specimens.xml.ref | ||
---|---|---|
237 | 237 |
<count>$IndividualCount</count> |
238 | 238 |
<notes>$convertednotes</notes> |
239 | 239 |
<plantobservation> |
240 |
<authorplantcode>$CollectorNumber</authorplantcode>
|
|
240 |
<collectionnumber>$CollectorNumber</collectionnumber>
|
|
241 | 241 |
<specimenreplicate> |
242 | 242 |
<catalognumber_dwc><_if name="if indirect voucher"><else>$CatalogNumber</else></_if></catalognumber_dwc> |
243 | 243 |
<collectioncode_dwc>$CollectionCode</collectioncode_dwc> |
244 |
<collectionnumber>$CollectorNumber</collectionnumber> |
|
245 | 244 |
<institution_id><party><organizationname>$InstitutionCode</organizationname></party></institution_id> |
246 | 245 |
</specimenreplicate> |
247 | 246 |
</plantobservation> |
inputs/MO/maps/VegBIEN.specimens.csv | ||
---|---|---|
24 | 24 |
YearCollected,"/location/locationevent/taxonoccurrence/aggregateoccurrence/collectiondate/_*/date/_alt/1/_date/year/_nullIf:[null=0,type=float]/value", |
25 | 25 |
IndividualCount,/location/locationevent/taxonoccurrence/aggregateoccurrence/count, |
26 | 26 |
convertednotes,/location/locationevent/taxonoccurrence/aggregateoccurrence/notes, |
27 |
CollectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode/_alt/1,
|
|
27 |
CollectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber/_alt/1,
|
|
28 | 28 |
CatalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/else", |
29 | 29 |
CollectionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_merge/1,Brad: Not sure if mapping correct. DwC element; code for entire collection; often same as InstitutionCode; Aaron: Combining with InstitutionCode to create collection name |
30 |
CollectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectionnumber/_alt/1, |
|
31 | 30 |
InstitutionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/party/organizationname, |
32 | 31 |
CollectorNumber,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1/_alt/1, |
33 | 32 |
IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/party/givenname/_namePart/first, |
schemas/vegbien.my.sql | ||
---|---|---|
1559 | 1559 |
aggregateoccurrence_id int(11) NOT NULL, |
1560 | 1560 |
overallheight double precision, |
1561 | 1561 |
overallheightaccuracy double precision, |
1562 |
authorplantcode text,
|
|
1562 |
collectionnumber text,
|
|
1563 | 1563 |
stemcount int(11), |
1564 | 1564 |
plant_id int(11), |
1565 | 1565 |
accessioncode text |
... | ... | |
1574 | 1574 |
|
1575 | 1575 |
|
1576 | 1576 |
-- |
1577 |
-- Name: COLUMN plantobservation.collectionnumber; Type: COMMENT; Schema: public; Owner: - |
|
1578 |
-- |
|
1579 |
|
|
1580 |
|
|
1581 |
|
|
1582 |
|
|
1583 |
-- |
|
1577 | 1584 |
-- Name: plantobservation_plantobservation_id_seq; Type: SEQUENCE; Schema: public; Owner: - |
1578 | 1585 |
-- |
1579 | 1586 |
|
... | ... | |
2122 | 2129 |
institution_id int(11), |
2123 | 2130 |
collectioncode_dwc text, |
2124 | 2131 |
catalognumber_dwc text, |
2125 |
collectionnumber text, |
|
2126 | 2132 |
description text, |
2127 | 2133 |
specimen_id int(11), |
2128 | 2134 |
accessioncode text |
... | ... | |
2151 | 2157 |
|
2152 | 2158 |
|
2153 | 2159 |
-- |
2154 |
-- Name: COLUMN specimenreplicate.collectionnumber; Type: COMMENT; Schema: public; Owner: - |
|
2155 |
-- |
|
2156 |
|
|
2157 |
|
|
2158 |
|
|
2159 |
|
|
2160 |
-- |
|
2161 | 2160 |
-- Name: specimenreplicate_specimenreplicate_id_seq; Type: SEQUENCE; Schema: public; Owner: - |
2162 | 2161 |
-- |
2163 | 2162 |
|
schemas/vegbien.sql | ||
---|---|---|
1965 | 1965 |
aggregateoccurrence_id integer NOT NULL, |
1966 | 1966 |
overallheight double precision, |
1967 | 1967 |
overallheightaccuracy double precision, |
1968 |
authorplantcode text,
|
|
1968 |
collectionnumber text,
|
|
1969 | 1969 |
stemcount integer, |
1970 | 1970 |
plant_id integer, |
1971 | 1971 |
accessioncode text |
... | ... | |
1980 | 1980 |
|
1981 | 1981 |
|
1982 | 1982 |
-- |
1983 |
-- Name: COLUMN plantobservation.collectionnumber; Type: COMMENT; Schema: public; Owner: - |
|
1984 |
-- |
|
1985 |
|
|
1986 |
COMMENT ON COLUMN plantobservation.collectionnumber IS 'The number of the organism within the data collection or event.'; |
|
1987 |
|
|
1988 |
|
|
1989 |
-- |
|
1983 | 1990 |
-- Name: plantobservation_plantobservation_id_seq; Type: SEQUENCE; Schema: public; Owner: - |
1984 | 1991 |
-- |
1985 | 1992 |
|
... | ... | |
2598 | 2605 |
institution_id integer, |
2599 | 2606 |
collectioncode_dwc text, |
2600 | 2607 |
catalognumber_dwc text, |
2601 |
collectionnumber text, |
|
2602 | 2608 |
description text, |
2603 | 2609 |
specimen_id integer, |
2604 | 2610 |
accessioncode text, |
... | ... | |
2628 | 2634 |
|
2629 | 2635 |
|
2630 | 2636 |
-- |
2631 |
-- Name: COLUMN specimenreplicate.collectionnumber; Type: COMMENT; Schema: public; Owner: - |
|
2632 |
-- |
|
2633 |
|
|
2634 |
COMMENT ON COLUMN specimenreplicate.collectionnumber IS 'The number of the specimenreplicate within the collection.'; |
|
2635 |
|
|
2636 |
|
|
2637 |
-- |
|
2638 | 2637 |
-- Name: specimenreplicate_specimenreplicate_id_seq; Type: SEQUENCE; Schema: public; Owner: - |
2639 | 2638 |
-- |
2640 | 2639 |
|
mappings/VegCSV-VegBIEN.specimens.csv | ||
---|---|---|
1 |
VegCSV[DwC],VegBIEN:,Comments |
|
2 |
plotArea,/location/area, |
|
3 |
plotName,/location/authorlocationcode/_alt/1, |
|
4 |
fieldNumber,/location/authorlocationcode/_alt/2, |
|
5 |
voucherType,"/location/authorlocationcode/_alt/4/_merge/3/_if[@name=""if indirect voucher""]/cond/_eq:[right=indirect]/left", |
|
6 |
catalogNumber,"/location/authorlocationcode/_alt/4/_merge/3/_if[@name=""if indirect voucher""]/else", |
|
7 |
verbatimElevation,"/location/elevation/_alt/1/_replace:[""\bca\.?""=]/value", |
|
8 |
maximumElevationInMeters,"/location/elevation/_alt/2/_avg/max/_units:[default=m,to=m,to=]/value/_replace:[""\bca\.?""=]/value", |
|
9 |
minimumElevationInMeters,"/location/elevation/_alt/2/_avg/min/_units:[default=m,to=m,to=]/value/_rangeStart/value/_replace:[""\bca\.?""=]/value", |
|
10 |
minimumElevationInMeters,"/location/elevationrange/_range/from/_units:[default=m,to=m,to=]/value/_rangeStart/value/_replace:[""\bca\.?""=]/value", |
|
11 |
maximumElevationInMeters,"/location/elevationrange/_range/to/_units:[default=m,to=m,to=]/value/_alt/1/_replace:[""\bca\.?""=]/value", |
|
12 |
minimumElevationInMeters,"/location/elevationrange/_range/to/_units:[default=m,to=m,to=]/value/_alt/2/_rangeEnd/value/_replace:[""\bca\.?""=]/value", |
|
13 |
landform,/location/landform, |
|
14 |
coordinateUncertaintyInMeters,/location/locationdetermination/coordsaccuracy/_noCV/value/_alt/1, |
|
15 |
footprintWKT,/location/locationdetermination/footprintgeometry_dwc, |
|
16 |
decimalLatitude,"/location/locationdetermination/latitude/_alt/1/_nullIf:[null=0,type=float]/value", |
|
17 |
decimalLongitude,"/location/locationdetermination/longitude/_alt/1/_nullIf:[null=0,type=float]/value", |
|
18 |
county,"/location/locationdetermination/namedplace_id/_simplifyPath:[next=""parent_id/namedplace"",require=placename]/path/_forEach:[in:[],do=""namedplace[rank=_val]/parent_id""]/namedplace[rank=county]/placename", |
|
19 |
stateProvince,"/location/locationdetermination/namedplace_id/_simplifyPath:[next=""parent_id/namedplace"",require=placename]/path/_forEach:[in:[county,],do=""namedplace[rank=_val]/parent_id""]/namedplace[rank=stateProvince]/placename", |
|
20 |
country,"/location/locationdetermination/namedplace_id/_simplifyPath:[next=""parent_id/namedplace"",require=placename]/path/_forEach:[in:[county,stateProvince,],do=""namedplace[rank=_val]/parent_id""]/namedplace[rank=country]/placename", |
|
21 |
continent,"/location/locationdetermination/namedplace_id/_simplifyPath:[next=""parent_id/namedplace"",require=placename]/path/_forEach:[in:[county,stateProvince,country,],do=""namedplace[rank=_val]/parent_id""]/namedplace[rank=continent]/placename", |
|
22 |
samplingProtocol,/location/locationevent/*_id/method/name, |
|
23 |
projectName,/location/locationevent/*_id/project/projectname, |
|
24 |
projectID,/location/locationevent/*_id/project/sourceaccessioncode, |
|
25 |
fieldNumber,/location/locationevent/authoreventcode, |
|
26 |
communityID,/location/locationevent/commclass/commdetermination/*_id/commconcept/*_id/*/commname, |
|
27 |
communityName,/location/locationevent/commclass/commdetermination/*_id/commconcept/commdescription, |
|
28 |
plotEventEndDate,/location/locationevent/obsenddate/_*/date/_dateRangeEnd/value, |
|
29 |
eventDate,/location/locationevent/obsenddate/_*/date/_dateRangeEnd/value/_alt/1, |
|
30 |
plotEventStartDate,/location/locationevent/obsstartdate/_*/date/_dateRangeStart/value, |
|
31 |
eventDate,/location/locationevent/obsstartdate/_*/date/_dateRangeStart/value/_alt/1, |
|
32 |
precipitation,/location/locationevent/precipitation, |
|
33 |
acidity,/location/locationevent/soilobs/acidity, |
|
34 |
baseSaturation,/location/locationevent/soilobs/basesaturation, |
|
35 |
calcium,/location/locationevent/soilobs/calcium, |
|
36 |
carbon,/location/locationevent/soilobs/carbon, |
|
37 |
cationExchangeCapacity,/location/locationevent/soilobs/cationexchangecapacity, |
|
38 |
clay,/location/locationevent/soilobs/clay, |
|
39 |
conductivity,/location/locationevent/soilobs/conductivity, |
|
40 |
magnesium,/location/locationevent/soilobs/magnesium, |
|
41 |
nitrogen,/location/locationevent/soilobs/nitrogen, |
|
42 |
organic,/location/locationevent/soilobs/organic, |
|
43 |
ph,/location/locationevent/soilobs/ph, |
|
44 |
phosphorus,/location/locationevent/soilobs/phosphorus, |
|
45 |
potassium,/location/locationevent/soilobs/potassium, |
|
46 |
sand,/location/locationevent/soilobs/sand, |
|
47 |
silt,/location/locationevent/soilobs/silt, |
|
48 |
sodium,/location/locationevent/soilobs/sodium, |
|
49 |
texture,/location/locationevent/soilobs/texture, |
|
50 |
individualCount,/location/locationevent/taxonoccurrence/aggregateoccurrence/count, |
|
51 |
coverPercent,/location/locationevent/taxonoccurrence/aggregateoccurrence/cover, |
|
52 |
censusNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/definedvalue[*_id/userdefined[tablename=aggregateoccurrence,userdefinedname=censusNo]]:[@fkey=tablerecord_id]/definedvalue", |
|
53 |
volumeCanopy,/location/locationevent/taxonoccurrence/aggregateoccurrence/linecover, |
|
54 |
fieldNotes,/location/locationevent/taxonoccurrence/aggregateoccurrence/notes, |
|
55 |
recordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode, |
|
56 |
individualID,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/sourceaccessioncode, |
|
57 |
voucherType,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/cond/_eq:[right=indirect]/left", |
|
58 |
catalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/else", |
|
59 |
stemCount,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemcount, |
|
60 |
basalDiameter,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/basaldiameter, |
|
61 |
canopyForm,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/definedvalue[*_id/userdefined[tablename=stemobservation,userdefinedname=canopyForm]]:[@fkey=tablerecord_id]/definedvalue", |
|
62 |
canopyPosition,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/definedvalue[*_id/userdefined[tablename=stemobservation,userdefinedname=canopyPosition]]:[@fkey=tablerecord_id]/definedvalue", |
|
63 |
diameterBreastHeightGentry,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/definedvalue[*_id/userdefined[tablename=stemobservation,userdefinedname=gentryDiameter]]:[@fkey=tablerecord_id]/definedvalue", |
|
64 |
lianaInfestation,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/definedvalue[*_id/userdefined[tablename=stemobservation,userdefinedname=lianaInfestation]]:[@fkey=tablerecord_id]/definedvalue", |
|
65 |
stemNotes,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/definedvalue[*_id/userdefined[tablename=stemobservation,userdefinedname=notes]]:[@fkey=tablerecord_id]/definedvalue", |
|
66 |
diameterBreastHeight,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/diameterbreastheight, |
|
67 |
height,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/height, |
|
68 |
heightFirstBranch,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/heightfirstbranch, |
|
69 |
tag,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/stemtag[""""/iscurrent/_alt/2=true]/tag",Quotes sort it before tag2 |
|
70 |
previousTag,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/stemtag[iscurrent=true]:[../stemtag?[iscurrent/_alt/2=true]/iscurrent/_alt/1=false]/tag, |
|
71 |
relativePlotX,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/xposition, |
|
72 |
relativePlotY,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/yposition, |
|
73 |
recordNumber,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1, |
|
74 |
scientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2, |
|
75 |
growthForm,/location/locationevent/taxonoccurrence/growthform, |
|
76 |
individualID,/location/locationevent/taxonoccurrence/sourceaccessioncode, |
|
77 |
computer.scientificNameAuthorship,"/location/locationevent/taxonoccurrence/taxondetermination[role=computer]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=authority]/plantname", |
|
78 |
computer.taxonRank,"/location/locationevent/taxonoccurrence/taxondetermination[role=computer]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=subspecies]/plantname/_name/first", |
|
79 |
computer.infraspecificEpithet,"/location/locationevent/taxonoccurrence/taxondetermination[role=computer]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=subspecies]/plantname/_name/last", |
|
80 |
computer.specificEpithet,"/location/locationevent/taxonoccurrence/taxondetermination[role=computer]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=species]/plantname", |
|
81 |
computer.genus,"/location/locationevent/taxonoccurrence/taxondetermination[role=computer]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=genus]/plantname", |
|
82 |
computer.family,"/location/locationevent/taxonoccurrence/taxondetermination[role=computer]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,genus,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=family]/plantname", |
|
83 |
scientificName,"/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[],do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname", |
|
84 |
scientificNameAuthorship,"/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=authority]/plantname", |
|
85 |
infraspecificEpithet,"/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=subspecies]/plantname", |
|
86 |
specificEpithet,"/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=species]/plantname", |
|
87 |
genus,"/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=genus]/plantname", |
|
88 |
family,"/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,genus,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=family]/plantname", |
|
89 |
order,"/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,genus,family,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=order]/plantname", |
|
90 |
class,"/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,genus,family,order,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=class]/plantname", |
|
91 |
phylum,"/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,genus,family,order,class,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=subkingdom]/plantname", |
|
92 |
kingdom,"/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,genus,family,order,class,subkingdom,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=kingdom]/plantname", |
|
93 |
identificationQualifier,/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/taxonfit, |
|
94 |
recordedBy.givenName,/location/locationevent/taxonoccurrence/verbatimcollectorname/_name/first, |
|
95 |
recordedBy.surName,/location/locationevent/taxonoccurrence/verbatimcollectorname/_name/last, |
|
96 |
voucherType,"/location/locationevent/taxonoccurrence/voucher/*_id/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/cond/_eq:[right=indirect]/left", |
|
97 |
catalogNumber,"/location/locationevent/taxonoccurrence/voucher/*_id/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/then", |
|
98 |
temperature,/location/locationevent/temperature, |
|
99 |
maximumDepthInMeters,"/location/locationevent/waterdepth/_avg/max/_units:[default=m,to=m,to=]/value/_replace:[""\bca\.?""=]/value", |
|
100 |
minimumDepthInMeters,"/location/locationevent/waterdepth/_avg/min/_units:[default=m,to=m,to=]/value/_replace:[""\bca\.?""=]/value", |
|
101 |
locality,/location/locationnarrative/_merge/1, |
|
102 |
plotNotes,/location/notespublic, |
|
103 |
parentPlotName,/location/parent_id/location/authorlocationcode, |
|
104 |
parentLocationID,/location/parent_id/location/sourceaccessioncode, |
|
105 |
slopeAspect,/location/slopeaspect/_compass/value, |
|
106 |
slopeGradient,/location/slopegradient, |
|
107 |
locationID,/location/sourceaccessioncode, |
|
1 |
"VegCSV[DwC]","VegBIEN:","Comments" |
|
2 |
"plotArea","/location/area", |
|
3 |
"plotName","/location/authorlocationcode/_alt/1", |
|
4 |
"fieldNumber","/location/authorlocationcode/_alt/2", |
|
5 |
"voucherType","/location/authorlocationcode/_alt/4/_merge/3/_if[@name=""if indirect voucher""]/cond/_eq:[right=indirect]/left", |
|
6 |
"catalogNumber","/location/authorlocationcode/_alt/4/_merge/3/_if[@name=""if indirect voucher""]/else", |
|
7 |
"verbatimElevation","/location/elevation/_alt/1/_replace:[""\bca\.?""=]/value", |
|
8 |
"maximumElevationInMeters","/location/elevation/_alt/2/_avg/max/_units:[default=m,to=m,to=]/value/_replace:[""\bca\.?""=]/value", |
|
9 |
"minimumElevationInMeters","/location/elevation/_alt/2/_avg/min/_units:[default=m,to=m,to=]/value/_rangeStart/value/_replace:[""\bca\.?""=]/value", |
|
10 |
"minimumElevationInMeters","/location/elevationrange/_range/from/_units:[default=m,to=m,to=]/value/_rangeStart/value/_replace:[""\bca\.?""=]/value", |
|
11 |
"maximumElevationInMeters","/location/elevationrange/_range/to/_units:[default=m,to=m,to=]/value/_alt/1/_replace:[""\bca\.?""=]/value", |
|
12 |
"minimumElevationInMeters","/location/elevationrange/_range/to/_units:[default=m,to=m,to=]/value/_alt/2/_rangeEnd/value/_replace:[""\bca\.?""=]/value", |
|
13 |
"landform","/location/landform", |
|
14 |
"coordinateUncertaintyInMeters","/location/locationdetermination/coordsaccuracy/_noCV/value/_alt/1", |
|
15 |
"footprintWKT","/location/locationdetermination/footprintgeometry_dwc", |
|
16 |
"decimalLatitude","/location/locationdetermination/latitude/_alt/1/_nullIf:[null=0,type=float]/value", |
|
17 |
"decimalLongitude","/location/locationdetermination/longitude/_alt/1/_nullIf:[null=0,type=float]/value", |
|
18 |
"county","/location/locationdetermination/namedplace_id/_simplifyPath:[next=""parent_id/namedplace"",require=placename]/path/_forEach:[in:[],do=""namedplace[rank=_val]/parent_id""]/namedplace[rank=county]/placename", |
|
19 |
"stateProvince","/location/locationdetermination/namedplace_id/_simplifyPath:[next=""parent_id/namedplace"",require=placename]/path/_forEach:[in:[county,],do=""namedplace[rank=_val]/parent_id""]/namedplace[rank=stateProvince]/placename", |
|
20 |
"country","/location/locationdetermination/namedplace_id/_simplifyPath:[next=""parent_id/namedplace"",require=placename]/path/_forEach:[in:[county,stateProvince,],do=""namedplace[rank=_val]/parent_id""]/namedplace[rank=country]/placename", |
|
21 |
"continent","/location/locationdetermination/namedplace_id/_simplifyPath:[next=""parent_id/namedplace"",require=placename]/path/_forEach:[in:[county,stateProvince,country,],do=""namedplace[rank=_val]/parent_id""]/namedplace[rank=continent]/placename", |
|
22 |
"samplingProtocol","/location/locationevent/*_id/method/name", |
|
23 |
"projectName","/location/locationevent/*_id/project/projectname", |
|
24 |
"projectID","/location/locationevent/*_id/project/sourceaccessioncode", |
|
25 |
"fieldNumber","/location/locationevent/authoreventcode", |
|
26 |
"communityID","/location/locationevent/commclass/commdetermination/*_id/commconcept/*_id/*/commname", |
|
27 |
"communityName","/location/locationevent/commclass/commdetermination/*_id/commconcept/commdescription", |
|
28 |
"plotEventEndDate","/location/locationevent/obsenddate/_*/date/_dateRangeEnd/value", |
|
29 |
"eventDate","/location/locationevent/obsenddate/_*/date/_dateRangeEnd/value/_alt/1", |
|
30 |
"plotEventStartDate","/location/locationevent/obsstartdate/_*/date/_dateRangeStart/value", |
|
31 |
"eventDate","/location/locationevent/obsstartdate/_*/date/_dateRangeStart/value/_alt/1", |
|
32 |
"precipitation","/location/locationevent/precipitation", |
|
33 |
"acidity","/location/locationevent/soilobs/acidity", |
|
34 |
"baseSaturation","/location/locationevent/soilobs/basesaturation", |
|
35 |
"calcium","/location/locationevent/soilobs/calcium", |
|
36 |
"carbon","/location/locationevent/soilobs/carbon", |
|
37 |
"cationExchangeCapacity","/location/locationevent/soilobs/cationexchangecapacity", |
|
38 |
"clay","/location/locationevent/soilobs/clay", |
|
39 |
"conductivity","/location/locationevent/soilobs/conductivity", |
|
40 |
"magnesium","/location/locationevent/soilobs/magnesium", |
|
41 |
"nitrogen","/location/locationevent/soilobs/nitrogen", |
|
42 |
"organic","/location/locationevent/soilobs/organic", |
|
43 |
"ph","/location/locationevent/soilobs/ph", |
|
44 |
"phosphorus","/location/locationevent/soilobs/phosphorus", |
|
45 |
"potassium","/location/locationevent/soilobs/potassium", |
|
46 |
"sand","/location/locationevent/soilobs/sand", |
|
47 |
"silt","/location/locationevent/soilobs/silt", |
|
48 |
"sodium","/location/locationevent/soilobs/sodium", |
|
49 |
"texture","/location/locationevent/soilobs/texture", |
|
50 |
"individualCount","/location/locationevent/taxonoccurrence/aggregateoccurrence/count", |
|
51 |
"coverPercent","/location/locationevent/taxonoccurrence/aggregateoccurrence/cover", |
|
52 |
"censusNumber","/location/locationevent/taxonoccurrence/aggregateoccurrence/definedvalue[*_id/userdefined[tablename=aggregateoccurrence,userdefinedname=censusNo]]:[@fkey=tablerecord_id]/definedvalue", |
|
53 |
"volumeCanopy","/location/locationevent/taxonoccurrence/aggregateoccurrence/linecover", |
|
54 |
"fieldNotes","/location/locationevent/taxonoccurrence/aggregateoccurrence/notes", |
|
55 |
"recordNumber","/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber", |
|
56 |
"individualID","/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/sourceaccessioncode", |
|
57 |
"voucherType","/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/cond/_eq:[right=indirect]/left", |
|
58 |
"catalogNumber","/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/else", |
|
59 |
"stemCount","/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemcount", |
|
60 |
"basalDiameter","/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/basaldiameter", |
|
61 |
"canopyForm","/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/definedvalue[*_id/userdefined[tablename=stemobservation,userdefinedname=canopyForm]]:[@fkey=tablerecord_id]/definedvalue", |
|
62 |
"canopyPosition","/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/definedvalue[*_id/userdefined[tablename=stemobservation,userdefinedname=canopyPosition]]:[@fkey=tablerecord_id]/definedvalue", |
|
63 |
"diameterBreastHeightGentry","/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/definedvalue[*_id/userdefined[tablename=stemobservation,userdefinedname=gentryDiameter]]:[@fkey=tablerecord_id]/definedvalue", |
|
64 |
"lianaInfestation","/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/definedvalue[*_id/userdefined[tablename=stemobservation,userdefinedname=lianaInfestation]]:[@fkey=tablerecord_id]/definedvalue", |
|
65 |
"stemNotes","/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/definedvalue[*_id/userdefined[tablename=stemobservation,userdefinedname=notes]]:[@fkey=tablerecord_id]/definedvalue", |
|
66 |
"diameterBreastHeight","/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/diameterbreastheight", |
|
67 |
"height","/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/height", |
|
68 |
"heightFirstBranch","/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/heightfirstbranch", |
|
69 |
"tag","/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/stemtag[""""/iscurrent/_alt/2=true]/tag","Quotes sort it before tag2" |
|
70 |
"previousTag","/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/stemtag[iscurrent=true]:[../stemtag?[iscurrent/_alt/2=true]/iscurrent/_alt/1=false]/tag", |
|
71 |
"relativePlotX","/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/xposition", |
|
72 |
"relativePlotY","/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/yposition", |
|
73 |
"recordNumber","/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1", |
|
74 |
"scientificName","/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2", |
|
75 |
"growthForm","/location/locationevent/taxonoccurrence/growthform", |
|
76 |
"individualID","/location/locationevent/taxonoccurrence/sourceaccessioncode", |
|
77 |
"computer.scientificNameAuthorship","/location/locationevent/taxonoccurrence/taxondetermination[role=computer]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=authority]/plantname", |
|
78 |
"computer.taxonRank","/location/locationevent/taxonoccurrence/taxondetermination[role=computer]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=subspecies]/plantname/_name/first", |
|
79 |
"computer.infraspecificEpithet","/location/locationevent/taxonoccurrence/taxondetermination[role=computer]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=subspecies]/plantname/_name/last", |
|
80 |
"computer.specificEpithet","/location/locationevent/taxonoccurrence/taxondetermination[role=computer]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=species]/plantname", |
|
81 |
"computer.genus","/location/locationevent/taxonoccurrence/taxondetermination[role=computer]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=genus]/plantname", |
|
82 |
"computer.family","/location/locationevent/taxonoccurrence/taxondetermination[role=computer]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,genus,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=family]/plantname", |
|
83 |
"scientificName","/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[],do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname", |
|
84 |
"scientificNameAuthorship","/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=authority]/plantname", |
|
85 |
"infraspecificEpithet","/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=subspecies]/plantname", |
|
86 |
"specificEpithet","/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=species]/plantname", |
|
87 |
"genus","/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=genus]/plantname", |
|
88 |
"family","/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,genus,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=family]/plantname", |
|
89 |
"order","/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,genus,family,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=order]/plantname", |
|
90 |
"class","/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,genus,family,order,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=class]/plantname", |
|
91 |
"phylum","/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,genus,family,order,class,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=subkingdom]/plantname", |
|
92 |
"kingdom","/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,genus,family,order,class,subkingdom,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=kingdom]/plantname", |
|
93 |
"identificationQualifier","/location/locationevent/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true]/taxonfit", |
|
94 |
"recordedBy.givenName","/location/locationevent/taxonoccurrence/verbatimcollectorname/_name/first", |
|
95 |
"recordedBy.surName","/location/locationevent/taxonoccurrence/verbatimcollectorname/_name/last", |
|
96 |
"voucherType","/location/locationevent/taxonoccurrence/voucher/*_id/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/cond/_eq:[right=indirect]/left", |
|
97 |
"catalogNumber","/location/locationevent/taxonoccurrence/voucher/*_id/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/then", |
|
98 |
"temperature","/location/locationevent/temperature", |
|
99 |
"maximumDepthInMeters","/location/locationevent/waterdepth/_avg/max/_units:[default=m,to=m,to=]/value/_replace:[""\bca\.?""=]/value", |
|
100 |
"minimumDepthInMeters","/location/locationevent/waterdepth/_avg/min/_units:[default=m,to=m,to=]/value/_replace:[""\bca\.?""=]/value", |
|
101 |
"locality","/location/locationnarrative/_merge/1", |
|
102 |
"plotNotes","/location/notespublic", |
|
103 |
"parentPlotName","/location/parent_id/location/authorlocationcode", |
|
104 |
"parentLocationID","/location/parent_id/location/sourceaccessioncode", |
|
105 |
"slopeAspect","/location/slopeaspect/_compass/value", |
|
106 |
"slopeGradient","/location/slopegradient", |
|
107 |
"locationID","/location/sourceaccessioncode", |
mappings/DwC2-VegBIEN.specimens.csv | ||
---|---|---|
30 | 30 |
dateCollected,/location/locationevent/taxonoccurrence/aggregateoccurrence/collectiondate/_*/date, |
31 | 31 |
individualCount,/location/locationevent/taxonoccurrence/aggregateoccurrence/count, |
32 | 32 |
fieldNotes,/location/locationevent/taxonoccurrence/aggregateoccurrence/notes, |
33 |
recordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode,
|
|
33 |
recordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber,
|
|
34 | 34 |
sex,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/definedvalue[*_id/userdefined[tablename=plantobservation,userdefinedname=sex]]:[@fkey=tablerecord_id]/definedvalue","Brad: OMIT. Apparently not used by this institution and of uncertain applicability to plants. With other collections, *sometimes* used for phenological information (if specimen in flower, in fruit, sterile, etc.). If so, this is important information we should keep. Bob, Nick, anywhere for phenological information in VB and VX?; Aaron: Keeping it because it's useful for some collections" |
35 | 35 |
individualID,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/sourceaccessioncode, |
36 | 36 |
catalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/else", |
37 | 37 |
collectionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_merge/1,Brad: Not sure if mapping correct. DwC element; code for entire collection; often same as InstitutionCode; Aaron: Combining with InstitutionCode to create collection name |
38 | 38 |
collectionID,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_merge/2, |
39 |
recordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectionnumber, |
|
40 | 39 |
institutionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/party/organizationname, |
41 | 40 |
occurrenceID,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
42 | 41 |
recordNumber,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1, |
mappings/for_review/VegCSV-VegBIEN.specimens.csv | ||
---|---|---|
2 | 2 |
plotArea,//location/area, |
3 | 3 |
plotName,//location/authorlocationcode, |
4 | 4 |
fieldNumber,//location/authorlocationcode, |
5 |
occurrenceID,//location/authorlocationcode, |
|
6 |
institutionCode,//location/authorlocationcode, |
|
7 |
collectionCode,//location/authorlocationcode, |
|
8 |
collectionID,//location/authorlocationcode, |
|
5 | 9 |
voucherType,"//location/authorlocationcode/_if[@name=""if indirect voucher""]/cond", |
6 | 10 |
catalogNumber,"//location/authorlocationcode/_if[@name=""if indirect voucher""]/else", |
7 | 11 |
verbatimElevation,//location/elevation, |
... | ... | |
12 | 16 |
minimumElevationInMeters,//location/elevationrange, |
13 | 17 |
landform,//location/landform, |
14 | 18 |
coordinateUncertaintyInMeters,//locationdetermination/coordsaccuracy, |
19 |
coordinatePrecision,//locationdetermination/coordsaccuracy, |
|
15 | 20 |
footprintWKT,//locationdetermination/footprintgeometry_dwc, |
16 | 21 |
decimalLatitude,//locationdetermination/latitude, |
22 |
verbatimLatitude,//locationdetermination/latitude, |
|
17 | 23 |
decimalLongitude,//locationdetermination/longitude, |
24 |
verbatimLongitude,//locationdetermination/longitude, |
|
18 | 25 |
county,//locationdetermination/namedplace_id[rank=county]/placename, |
19 | 26 |
stateProvince,//locationdetermination/namedplace_id[rank=stateProvince]/placename, |
20 | 27 |
country,//locationdetermination/namedplace_id[rank=country]/placename, |
... | ... | |
27 | 34 |
communityName,//commconcept/commdescription, |
28 | 35 |
plotEventEndDate,//locationevent/obsenddate/_*/date, |
29 | 36 |
eventDate,//locationevent/obsenddate/_*/date, |
37 |
dateCollected,//locationevent/obsenddate/_*/date, |
|
30 | 38 |
plotEventStartDate,//locationevent/obsstartdate/_*/date, |
31 | 39 |
eventDate,//locationevent/obsstartdate/_*/date, |
40 |
dateCollected,//locationevent/obsstartdate/_*/date, |
|
32 | 41 |
precipitation,//locationevent/precipitation, |
33 | 42 |
acidity,//soilobs/acidity, |
34 | 43 |
baseSaturation,//soilobs/basesaturation, |
... | ... | |
47 | 56 |
silt,//soilobs/silt, |
48 | 57 |
sodium,//soilobs/sodium, |
49 | 58 |
texture,//soilobs/texture, |
59 |
dateCollected,//aggregateoccurrence/collectiondate/_*/date, |
|
50 | 60 |
individualCount,//aggregateoccurrence/count, |
51 | 61 |
coverPercent,//aggregateoccurrence/cover, |
52 | 62 |
censusNumber,"//aggregateoccurrence/definedvalue[*_id/userdefined[tablename=aggregateoccurrence,userdefinedname=censusNo]]/definedvalue", |
53 | 63 |
volumeCanopy,//aggregateoccurrence/linecover, |
54 | 64 |
fieldNotes,//aggregateoccurrence/notes, |
55 | 65 |
recordNumber,//plantobservation/authorplantcode, |
66 |
sex,"//plantobservation/definedvalue[*_id/userdefined[tablename=plantobservation,userdefinedname=sex]]/definedvalue","Brad: OMIT. Apparently not used by this institution and of uncertain applicability to plants. With other collections, *sometimes* used for phenological information (if specimen in flower, in fruit, sterile, etc.). If so, this is important information we should keep. Bob, Nick, anywhere for phenological information in VB and VX?; Aaron: Keeping it because it's useful for some collections" |
|
56 | 67 |
individualID,//plantobservation/sourceaccessioncode, |
57 | 68 |
voucherType,"//specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/cond", |
58 | 69 |
catalogNumber,"//specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/else", |
70 |
collectionCode,//specimenreplicate/collectioncode_dwc,Brad: Not sure if mapping correct. DwC element; code for entire collection; often same as InstitutionCode; Aaron: Combining with InstitutionCode to create collection name |
|
71 |
collectionID,//specimenreplicate/collectioncode_dwc, |
|
72 |
recordNumber,//specimenreplicate/collectionnumber, |
|
73 |
institutionCode,//party/organizationname, |
|
74 |
occurrenceID,//specimenreplicate/sourceaccessioncode, |
|
59 | 75 |
stemCount,//plantobservation/stemcount, |
60 | 76 |
basalDiameter,//stemobservation/basaldiameter, |
61 | 77 |
canopyForm,"//stemobservation/definedvalue[*_id/userdefined[tablename=stemobservation,userdefinedname=canopyForm]]/definedvalue", |
... | ... | |
73 | 89 |
recordNumber,//taxonoccurrence/authortaxoncode, |
74 | 90 |
scientificName,//taxonoccurrence/authortaxoncode, |
75 | 91 |
growthForm,//taxonoccurrence/growthform, |
92 |
establishmentMeans,//taxonoccurrence/iscultivated, |
|
93 |
establishmentMeans,//taxonoccurrence/isnative, |
|
76 | 94 |
individualID,//taxonoccurrence/sourceaccessioncode, |
77 | 95 |
computer.scientificNameAuthorship,//plantconcept/plantname_id[rank=authority]/plantname, |
78 | 96 |
computer.taxonRank,//plantconcept/plantname_id[rank=subspecies]/plantname, |
... | ... | |
80 | 98 |
computer.specificEpithet,//plantconcept/plantname_id[rank=species]/plantname, |
81 | 99 |
computer.genus,//plantconcept/plantname_id[rank=genus]/plantname, |
82 | 100 |
computer.family,//plantconcept/plantname_id[rank=family]/plantname, |
101 |
identifiedBy,//taxonoccurrence/taxondetermination[role=identifier]/*_id/party/givenname, |
|
102 |
identifiedBy,//taxonoccurrence/taxondetermination[role=identifier]/*_id/party/middlename, |
|
103 |
identifiedBy,//taxonoccurrence/taxondetermination[role=identifier]/*_id/party/surname, |
|
83 | 104 |
scientificName,//plantconcept/plantname_id[rank=binomial]/plantname, |
84 | 105 |
scientificNameAuthorship,//plantconcept/plantname_id[rank=authority]/plantname, |
85 | 106 |
infraspecificEpithet,//plantconcept/plantname_id[rank=subspecies]/plantname, |
... | ... | |
90 | 111 |
class,//plantconcept/plantname_id[rank=class]/plantname, |
91 | 112 |
phylum,//plantconcept/plantname_id[rank=subkingdom]/plantname, |
92 | 113 |
kingdom,//plantconcept/plantname_id[rank=kingdom]/plantname, |
114 |
dateIdentified,//taxonoccurrence/taxondetermination[role=identifier]/determinationdate/_*/date, |
|
115 |
taxonRemarks,//taxonoccurrence/taxondetermination[role=identifier]/notes, |
|
93 | 116 |
identificationQualifier,//taxonoccurrence/taxondetermination[role=identifier]/taxonfit, |
117 |
recordedBy,//taxonoccurrence/verbatimcollectorname, |
|
94 | 118 |
recordedBy.givenName,//taxonoccurrence/verbatimcollectorname, |
95 | 119 |
recordedBy.surName,//taxonoccurrence/verbatimcollectorname, |
96 | 120 |
voucherType,"//specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/cond", |
... | ... | |
99 | 123 |
maximumDepthInMeters,//locationevent/waterdepth, |
100 | 124 |
minimumDepthInMeters,//locationevent/waterdepth, |
101 | 125 |
locality,//location/locationnarrative, |
126 |
verbatimLocality,//location/locationnarrative, |
|
127 |
habitat,"//location/locationnarrative/_label[label=""habitat""]/value","Brad: Free-text description of vegetation community where collected, frequently redundane wrt 'Vegetation'. Bob, Nick: keep as user defined or create special element?" |
|
102 | 128 |
plotNotes,//location/notespublic, |
103 | 129 |
parentPlotName,//location/authorlocationcode, |
104 | 130 |
parentLocationID,//location/sourceaccessioncode, |
105 | 131 |
slopeAspect,//location/slopeaspect, |
106 | 132 |
slopeGradient,//location/slopegradient, |
107 | 133 |
locationID,//location/sourceaccessioncode, |
134 |
acceptedNameUsage,, |
|
135 |
acceptedNameUsageID,, |
|
136 |
associatedMedia,, |
|
137 |
associatedOccurrences,, |
|
138 |
associatedReferences,, |
|
139 |
associatedSequences,, |
|
140 |
associatedTaxa,, |
|
141 |
basisOfRecord,,Brad: OMIT? See http://rs.tdwg.org/dwc/terms/index.htm#basisOfRecord for definition of this term. |
|
142 |
bed,, |
|
143 |
behavior,, |
|
144 |
countryCode,, |
|
145 |
dataGeneralizations,, |
|
146 |
datasetID,, |
|
147 |
datasetName,, |
|
148 |
day,,Brad: OMIT |
|
149 |
dcterms:accessRights,, |
|
150 |
dcterms:bibliographicCitation,, |
|
151 |
dcterms:language,, |
|
152 |
dcterms:modified,,"Brad: Mapping to VegX is incorrect. I think is this merely an internal timestamp indicated when record last modified, not necessarily when determination (taxon name) last modified. Probably we should omit this field, although might be useful for updating changed records from this source." |
|
153 |
dcterms:references,, |
|
154 |
dcterms:rights,, |
|
155 |
dcterms:rightsHolder,, |
|
156 |
dcterms:type,, |
|
157 |
disposition,, |
|
158 |
dynamicProperties,, |
|
159 |
earliestAgeOrLowestStage,, |
|
160 |
earliestEonOrLowestEonothem,, |
|
161 |
earliestEpochOrLowestSeries,, |
|
162 |
earliestEraOrLowestErathem,, |
|
163 |
earliestPeriodOrLowestSystem,, |
|
164 |
endDayOfYear,, |
|
165 |
eventID,, |
|
166 |
eventRemarks,, |
|
167 |
eventTime,,Brad: OMIT |
|
168 |
footprintSRS,, |
|
169 |
footprintSpatialFit,, |
|
170 |
formation,, |
|
171 |
geodeticDatum,, |
|
172 |
geologicalContextID,, |
|
173 |
georeferenceProtocol,, |
|
174 |
georeferenceRemarks,, |
|
175 |
georeferenceSources,, |
|
176 |
georeferenceVerificationStatus,, |
|
177 |
georeferencedBy,, |
|
178 |
georeferencedDate,, |
|
179 |
group,, |
|
180 |
higherClassification,, |
|
181 |
higherGeography,, |
|
182 |
higherGeographyID,, |
|
183 |
highestBiostratigraphicZone,, |
|
184 |
identificationID,, |
|
185 |
identificationReferences,, |
|
186 |
identificationRemarks,, |
|
187 |
identificationVerificationStatus,, |
|
188 |
informationWithheld,, |
|
189 |
institutionID,, |
|
190 |
island,, |
|
191 |
islandGroup,, |
|
192 |
latestAgeOrHighestStage,, |
|
193 |
latestEonOrHighestEonothem,, |
|
194 |
latestEpochOrHighestSeries,, |
|
195 |
latestEraOrHighestErathem,, |
|
196 |
latestPeriodOrHighestSystem,, |
|
197 |
lifeStage,, |
|
198 |
lithostratigraphicTerms,, |
|
199 |
locationAccordingTo,, |
|
200 |
locationRemarks,, |
|
201 |
lowestBiostratigraphicZone,, |
|
202 |
maximumDistanceAboveSurfaceInMeters,, |
|
203 |
measurementAccuracy,, |
|
204 |
measurementDeterminedBy,, |
|
205 |
measurementDeterminedDate,, |
|
206 |
measurementID,, |
|
207 |
measurementMethod,, |
|
208 |
measurementRemarks,, |
|
209 |
measurementType,, |
|
210 |
measurementUnit,, |
|
211 |
measurementValue,, |
|
212 |
member,, |
|
213 |
minimumDistanceAboveSurfaceInMeters,, |
|
214 |
month,, |
|
215 |
municipality,, |
|
216 |
nameAccordingTo,, |
|
217 |
nameAccordingToID,, |
|
218 |
namePublishedIn,, |
|
219 |
namePublishedInID,, |
|
220 |
namePublishedInYear,, |
|
221 |
nomenclaturalCode,, |
|
222 |
nomenclaturalStatus,, |
|
223 |
occurrenceRemarks,, |
|
224 |
occurrenceStatus,, |
|
225 |
originalNameUsage,, |
|
226 |
originalNameUsageID,, |
|
227 |
otherCatalogNumbers,, |
|
228 |
ownerInstitutionCode,, |
|
229 |
parentNameUsage,, |
|
230 |
parentNameUsageID,, |
|
231 |
pointRadiusSpatialFit,, |
|
232 |
preparations,,Brad: OMIT |
|
233 |
previousIdentifications,,Brad: OMIT |
|
234 |
relatedResourceID,,Brad: OMIT |
|
235 |
relationshipAccordingTo,, |
|
236 |
relationshipEstablishedDate,, |
|
237 |
relationshipOfResource,,Brad: OMIT |
|
238 |
relationshipRemarks,, |
|
239 |
reproductiveCondition,, |
|
240 |
resourceID,, |
|
241 |
resourceRelationshipID,, |
|
242 |
samplingEffort,, |
|
243 |
scientificNameID,, |
|
244 |
startDayOfYear,, |
|
245 |
subgenus,, |
|
246 |
taxonConceptID,, |
|
247 |
taxonID,, |
|
248 |
taxonRank,, |
|
249 |
taxonomicStatus,, |
|
250 |
typeStatus,,Brad: OMIT (?). Indicates whether this specimen served as type for taxon name. Probably not relevant for BIEN |
|
251 |
verbatimCoordinateSystem,, |
|
252 |
verbatimCoordinates,, |
|
253 |
verbatimDepth,, |
|
254 |
verbatimEventDate,, |
|
255 |
verbatimSRS,, |
|
256 |
verbatimTaxonRank,, |
|
257 |
vernacularName,, |
|
258 |
waterBody,, |
|
259 |
year,, |
mappings/DwC-VegBIEN.specimens.csv | ||
---|---|---|
117 | 117 |
Notes,/location/locationevent/taxonoccurrence/aggregateoccurrence/notes, |
118 | 118 |
fieldNotes,/location/locationevent/taxonoccurrence/aggregateoccurrence/notes, |
119 | 119 |
notes,/location/locationevent/taxonoccurrence/aggregateoccurrence/notes, |
120 |
CollectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode/_alt/1,
|
|
121 |
collectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode/_alt/1,
|
|
122 |
RecordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode/_alt/2,
|
|
123 |
recordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode/_alt/2,
|
|
120 |
CollectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber/_alt/1,
|
|
121 |
collectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber/_alt/1,
|
|
122 |
RecordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber/_alt/2,
|
|
123 |
recordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber/_alt/2,
|
|
124 | 124 |
Sex,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/definedvalue[*_id/userdefined[tablename=plantobservation,userdefinedname=sex]]:[@fkey=tablerecord_id]/definedvalue","Brad: OMIT. Apparently not used by this institution and of uncertain applicability to plants. With other collections, *sometimes* used for phenological information (if specimen in flower, in fruit, sterile, etc.). If so, this is important information we should keep. Bob, Nick, anywhere for phenological information in VB and VX?; Aaron: Keeping it because it's useful for some collections" |
125 | 125 |
sex,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/definedvalue[*_id/userdefined[tablename=plantobservation,userdefinedname=sex]]:[@fkey=tablerecord_id]/definedvalue","Brad: OMIT. Apparently not used by this institution and of uncertain applicability to plants. With other collections, *sometimes* used for phenological information (if specimen in flower, in fruit, sterile, etc.). If so, this is important information we should keep. Bob, Nick, anywhere for phenological information in VB and VX?; Aaron: Keeping it because it's useful for some collections" |
126 | 126 |
IndividualID,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/sourceaccessioncode, |
... | ... | |
131 | 131 |
collectionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_merge/1,Brad: Not sure if mapping correct. DwC element; code for entire collection; often same as InstitutionCode; Aaron: Combining with InstitutionCode to create collection name |
132 | 132 |
CollectionID,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_merge/2, |
133 | 133 |
collectionID,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_merge/2, |
134 |
CollectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectionnumber/_alt/1, |
|
135 |
collectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectionnumber/_alt/1, |
|
136 |
RecordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectionnumber/_alt/2, |
|
137 |
recordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectionnumber/_alt/2, |
|
138 | 134 |
InstitutionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/party/organizationname, |
139 | 135 |
institutionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/party/organizationname, |
140 | 136 |
GlobalUniqueIdentifier,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
Also available in: Unified diff
schemas/vegbien.sql: Moved collectionnumber from specimenreplicate to plantobservation to replace authorplantcode, since these terms are used analogously in plots and specimens data. This code is really the DwC recordNumber (VegBIEN collectionnumber), which "serves as a link between field notes and an Occurrence record, such as a specimen [or plots data] collector's number" (http://rs.tdwg.org/dwc/terms/#recordNumber). Also, this prevents a specimenreplicate from incorrectly being created when plots data provides an authorplantcode.